Ludovic PLATON / IRSOM

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Ludovic PLATON
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...@@ -55,14 +55,14 @@ make ...@@ -55,14 +55,14 @@ make
55 ## Train a model 55 ## Train a model
56 Default usage: 56 Default usage:
57 ``` bash 57 ``` bash
58 -python scripts/train.py --featurer=${path_IRSOM}/bin/Featurer -c coding.fasta -n noncoding.fasta --output=output_dir_of_model 58 +python ${path_IRSOM}scripts/train.py --featurer=${path_IRSOM}/bin/Featurer -c coding.fasta -n noncoding.fasta --output=output_dir_of_model
59 ``` 59 ```
60 60
61 The use of multiple fasta files are allowed with this script. 61 The use of multiple fasta files are allowed with this script.
62 For example, we can create a model with 2 coding fasta files and 3 non-coding fasta files with the following command: 62 For example, we can create a model with 2 coding fasta files and 3 non-coding fasta files with the following command:
63 63
64 ``` bash 64 ``` bash
65 -python scripts/train.py --featurer=${path_IRSOM}/bin/Featurer -c coding1.fasta -c coding2.fasta -n noncoding1.fasta -n noncoding2.fasta -n noncoding3.fasta 65 +python ${path_IRSOM}scripts/train.py --featurer=${path_IRSOM}/bin/Featurer -c coding1.fasta -c coding2.fasta -n noncoding1.fasta -n noncoding2.fasta -n noncoding3.fasta
66 ``` 66 ```
67 67
68 The model parameters can be set by the command parameters: 68 The model parameters can be set by the command parameters:
...@@ -78,7 +78,7 @@ To keep this files, use the parameter --keep\_features. ...@@ -78,7 +78,7 @@ To keep this files, use the parameter --keep\_features.
78 78
79 Default usage: 79 Default usage:
80 ``` bash 80 ``` bash
81 -python scripts/predict.py --featurer=${path_IRSOM}/bin/Featurer --file=fasta_file.fasta --model=${path_IRSOM}/model/species/ --output=output_dir_of_result [--reject=${rejection_threshold}] 81 +python ${path_IRSOM}/scripts/predict.py --featurer=${path_IRSOM}/bin/Featurer --file=fasta_file.fasta --model=${path_IRSOM}/model/species/ --output=output_dir_of_result [--reject=${rejection_threshold}]
82 ``` 82 ```
83 83
84 The rejection threshold can be set with the option `--reject`. 84 The rejection threshold can be set with the option `--reject`.
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